Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models
Create a scaRabee Analysis Folder
Read scaRabee Data File
Read scaRabee Model File
Forces parameter estimates between defined boundaries.
Explicit Equations
Finalize Direct Grid Search Report
Finalize Estimation Report
Computation of the Covariance Matrix
Maximum Likelihood Estimator
Ordinary Differential Equations
Utility Functions for Ordinary Differential Equation Systems
Sort a scaRabee parameter table
Compute Matrix of Partial Derivatives
Read scaRabee Parameter File
Create Simulation Plots
Simulations
Residual Variability
Datasets for scaRabee demo.
Direct Grid Search Utility
Computes secondary parameter values
Process Infusion Information
Delay Differential Equations
Utility Functions for Delay Differential Equation Systems
Create Summary Estimation Plots
Computation of the Covariance Matrix
Create events from bolus dosing records.
Layout for Lattice Functions
Extract data from scaRabee parameter table
Computation of Secondary Parameter Estimates
Initialize Report Files
Evaluation of structural and residual variability models
Creation of Prediction & Residual Report
scaRabee toolkit
Run a scaRabee Analysis
Check scaRabee Models
Check for Reserved Variable Names
Cleaning of the Run Directory
Creation of the Run Directory
A port of the Scarabee toolkit originally written as a Matlab-based application. scaRabee provides a framework for simulation and optimization of pharmacokinetic-pharmacodynamic models at the individual and population level. It is built on top of the neldermead package, which provides the direct search algorithm proposed by Nelder and Mead for model optimization.